Multiple sequence alignment - TraesCS3D01G366100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3D01G366100 chr3D 100.000 2894 0 0 1 2894 480374821 480377714 0.000000e+00 5345.0
1 TraesCS3D01G366100 chr3D 89.049 1735 104 29 185 1895 480365938 480367610 0.000000e+00 2073.0
2 TraesCS3D01G366100 chr3D 93.505 1124 63 4 776 1895 480357787 480358904 0.000000e+00 1663.0
3 TraesCS3D01G366100 chr3D 92.228 193 12 3 2 193 480362787 480362977 1.320000e-68 270.0
4 TraesCS3D01G366100 chr3D 86.861 137 13 3 38 171 480355785 480355919 6.460000e-32 148.0
5 TraesCS3D01G366100 chr3B 92.368 1913 124 11 1 1895 640699697 640701605 0.000000e+00 2704.0
6 TraesCS3D01G366100 chr3B 91.508 1684 106 21 592 2256 640831858 640833523 0.000000e+00 2283.0
7 TraesCS3D01G366100 chr3B 92.659 1117 75 5 784 1895 640708119 640709233 0.000000e+00 1602.0
8 TraesCS3D01G366100 chr3B 92.148 917 70 2 980 1895 640693498 640694413 0.000000e+00 1293.0
9 TraesCS3D01G366100 chr3B 92.790 319 20 3 2397 2712 640834006 640834324 2.630000e-125 459.0
10 TraesCS3D01G366100 chr3B 87.633 283 27 4 10 285 640705757 640706038 3.600000e-84 322.0
11 TraesCS3D01G366100 chr3B 86.301 146 20 0 11 156 640809787 640809932 2.980000e-35 159.0
12 TraesCS3D01G366100 chr3B 83.152 184 17 8 2716 2894 640834368 640834542 3.860000e-34 156.0
13 TraesCS3D01G366100 chr3A 90.337 1573 128 12 475 2036 623389112 623390671 0.000000e+00 2041.0
14 TraesCS3D01G366100 chr3A 94.095 1321 77 1 576 1895 623361828 623363148 0.000000e+00 2006.0
15 TraesCS3D01G366100 chr3A 91.527 1310 92 8 592 1895 623354103 623355399 0.000000e+00 1786.0
16 TraesCS3D01G366100 chr3A 92.366 917 68 2 980 1895 623340342 623341257 0.000000e+00 1304.0
17 TraesCS3D01G366100 chr3A 91.083 471 35 6 1 470 623388573 623389037 5.260000e-177 630.0
18 TraesCS3D01G366100 chr3A 87.363 546 56 7 4 537 623358419 623358963 5.300000e-172 614.0
19 TraesCS3D01G366100 chr3A 89.899 396 34 4 14 405 623352274 623352667 3.330000e-139 505.0
20 TraesCS3D01G366100 chr5A 95.238 42 2 0 478 519 405673961 405673920 1.860000e-07 67.6


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3D01G366100 chr3D 480374821 480377714 2893 False 5345.00 5345 100.00000 1 2894 1 chr3D.!!$F1 2893
1 TraesCS3D01G366100 chr3D 480355785 480367610 11825 False 1038.50 2073 90.41075 2 1895 4 chr3D.!!$F2 1893
2 TraesCS3D01G366100 chr3B 640699697 640701605 1908 False 2704.00 2704 92.36800 1 1895 1 chr3B.!!$F2 1894
3 TraesCS3D01G366100 chr3B 640693498 640694413 915 False 1293.00 1293 92.14800 980 1895 1 chr3B.!!$F1 915
4 TraesCS3D01G366100 chr3B 640831858 640834542 2684 False 966.00 2283 89.15000 592 2894 3 chr3B.!!$F5 2302
5 TraesCS3D01G366100 chr3B 640705757 640709233 3476 False 962.00 1602 90.14600 10 1895 2 chr3B.!!$F4 1885
6 TraesCS3D01G366100 chr3A 623388573 623390671 2098 False 1335.50 2041 90.71000 1 2036 2 chr3A.!!$F3 2035
7 TraesCS3D01G366100 chr3A 623340342 623341257 915 False 1304.00 1304 92.36600 980 1895 1 chr3A.!!$F1 915
8 TraesCS3D01G366100 chr3A 623352274 623363148 10874 False 1227.75 2006 90.72100 4 1895 4 chr3A.!!$F2 1891

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
923 15594 0.381801 ACAAGGCAAAACACAGAGCG 59.618 50.0 0.0 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2372 17061 0.101399 AGTGGCAGCGACGATAAGAG 59.899 55.0 0.0 0.0 0.0 2.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
108 113 5.981088 TTGCTCCTTATGCAAAAGAATGA 57.019 34.783 0.00 0.00 45.81 2.57
406 12158 3.284323 TCTGTGTCGAAAGCTCACTAC 57.716 47.619 4.37 0.00 36.90 2.73
440 12192 3.815401 ACGCCTTTCAGTGATTATATGGC 59.185 43.478 8.67 8.67 35.02 4.40
456 12208 9.890629 GATTATATGGCCACTGAGTATAATCAA 57.109 33.333 30.17 12.04 0.00 2.57
537 12506 3.857194 CTTTCAACAAAGTACGGTGACG 58.143 45.455 5.91 0.00 46.03 4.35
620 15284 1.466856 ATACGTTCTGTCCGGCACTA 58.533 50.000 0.00 0.00 0.00 2.74
758 15424 3.397849 ACGGAACTTTTCTACCCTCAC 57.602 47.619 0.00 0.00 0.00 3.51
781 15447 4.931601 CCTTTACTTAACCGTAACCACTCC 59.068 45.833 0.00 0.00 0.00 3.85
908 15579 0.734309 TGCGCCATAGCAATGACAAG 59.266 50.000 4.18 0.00 45.06 3.16
923 15594 0.381801 ACAAGGCAAAACACAGAGCG 59.618 50.000 0.00 0.00 0.00 5.03
944 15625 2.712709 CGTCTCCTCACTAGTCTCCAA 58.287 52.381 0.00 0.00 0.00 3.53
977 15659 1.092345 GGCTAGGCTACTTGCACAGC 61.092 60.000 9.46 5.73 45.48 4.40
1350 16032 1.830408 CCTCTCTTCTCCCGGCGAT 60.830 63.158 9.30 0.00 0.00 4.58
1393 16075 0.400213 CTGGAACAACTACCTGGGCA 59.600 55.000 0.00 0.00 38.70 5.36
1827 16509 2.559668 CTCTCCAAAGTACGGTGGTGTA 59.440 50.000 15.09 4.46 36.23 2.90
1927 16609 1.000506 GTTCTCCCGAGCAGTGTGTTA 59.999 52.381 0.00 0.00 0.00 2.41
1955 16637 6.071221 TGTGGGTATCTTTGTAAGTACGATGT 60.071 38.462 0.00 0.00 0.00 3.06
1956 16638 6.815142 GTGGGTATCTTTGTAAGTACGATGTT 59.185 38.462 0.00 0.00 0.00 2.71
1957 16639 7.975616 GTGGGTATCTTTGTAAGTACGATGTTA 59.024 37.037 0.00 0.00 0.00 2.41
1984 16666 6.545666 TCTTTGGTCTTTTCATCTTTGTGCTA 59.454 34.615 0.00 0.00 0.00 3.49
1998 16680 6.148948 TCTTTGTGCTAATGTATTTGTGTGC 58.851 36.000 0.00 0.00 0.00 4.57
2062 16744 7.078228 GTGTGATTCTTGTGTTGGAATTAGAC 58.922 38.462 0.00 0.00 33.05 2.59
2064 16746 5.995282 TGATTCTTGTGTTGGAATTAGACGT 59.005 36.000 0.00 0.00 33.05 4.34
2071 16753 6.050432 TGTGTTGGAATTAGACGTTAGTGTT 58.950 36.000 0.00 0.00 0.00 3.32
2079 16761 7.201418 GGAATTAGACGTTAGTGTTGTTAGCTC 60.201 40.741 0.00 0.00 0.00 4.09
2083 16765 4.878439 ACGTTAGTGTTGTTAGCTCATCA 58.122 39.130 0.00 0.00 0.00 3.07
2090 16772 6.672147 AGTGTTGTTAGCTCATCATTGTTTC 58.328 36.000 0.00 0.00 0.00 2.78
2091 16773 6.488006 AGTGTTGTTAGCTCATCATTGTTTCT 59.512 34.615 0.00 0.00 0.00 2.52
2096 16778 6.073058 TGTTAGCTCATCATTGTTTCTGTGAC 60.073 38.462 0.00 0.00 0.00 3.67
2112 16794 3.507786 TGTGACATGTCGTATGCAGTAC 58.492 45.455 20.54 10.27 0.00 2.73
2219 16901 3.512329 TGCAAGACGGGTACAAGAGATTA 59.488 43.478 0.00 0.00 0.00 1.75
2220 16902 3.864003 GCAAGACGGGTACAAGAGATTAC 59.136 47.826 0.00 0.00 0.00 1.89
2224 16906 6.295719 AGACGGGTACAAGAGATTACATTT 57.704 37.500 0.00 0.00 0.00 2.32
2225 16907 6.106673 AGACGGGTACAAGAGATTACATTTG 58.893 40.000 0.00 0.00 0.00 2.32
2252 16941 9.043079 GTATATGTTTAACTTGGCTCCTAAGAC 57.957 37.037 0.00 0.00 0.00 3.01
2256 16945 7.630082 TGTTTAACTTGGCTCCTAAGACATAT 58.370 34.615 0.00 0.00 41.30 1.78
2257 16946 8.764558 TGTTTAACTTGGCTCCTAAGACATATA 58.235 33.333 0.00 0.00 41.30 0.86
2258 16947 9.780186 GTTTAACTTGGCTCCTAAGACATATAT 57.220 33.333 0.00 0.00 41.30 0.86
2261 16950 8.492415 AACTTGGCTCCTAAGACATATATACA 57.508 34.615 0.00 0.00 41.30 2.29
2262 16951 8.128322 ACTTGGCTCCTAAGACATATATACAG 57.872 38.462 0.00 0.00 41.30 2.74
2263 16952 7.950684 ACTTGGCTCCTAAGACATATATACAGA 59.049 37.037 0.00 0.00 41.30 3.41
2264 16953 7.946381 TGGCTCCTAAGACATATATACAGAG 57.054 40.000 0.00 0.00 34.81 3.35
2265 16954 7.699878 TGGCTCCTAAGACATATATACAGAGA 58.300 38.462 0.00 0.00 34.81 3.10
2266 16955 7.831690 TGGCTCCTAAGACATATATACAGAGAG 59.168 40.741 0.00 0.00 34.81 3.20
2267 16956 8.050325 GGCTCCTAAGACATATATACAGAGAGA 58.950 40.741 0.00 0.00 0.00 3.10
2268 16957 9.109393 GCTCCTAAGACATATATACAGAGAGAG 57.891 40.741 0.00 0.00 0.00 3.20
2271 16960 9.109393 CCTAAGACATATATACAGAGAGAGAGC 57.891 40.741 0.00 0.00 0.00 4.09
2272 16961 9.890629 CTAAGACATATATACAGAGAGAGAGCT 57.109 37.037 0.00 0.00 0.00 4.09
2273 16962 8.565896 AAGACATATATACAGAGAGAGAGCTG 57.434 38.462 0.00 0.00 38.10 4.24
2274 16963 7.689299 AGACATATATACAGAGAGAGAGCTGT 58.311 38.462 0.00 0.00 46.31 4.40
2281 16970 5.991933 ACAGAGAGAGAGCTGTATTTGAA 57.008 39.130 0.00 0.00 43.10 2.69
2282 16971 5.719173 ACAGAGAGAGAGCTGTATTTGAAC 58.281 41.667 0.00 0.00 43.10 3.18
2283 16972 5.244851 ACAGAGAGAGAGCTGTATTTGAACA 59.755 40.000 0.00 0.00 43.10 3.18
2284 16973 5.576384 CAGAGAGAGAGCTGTATTTGAACAC 59.424 44.000 0.00 0.00 0.00 3.32
2285 16974 5.244851 AGAGAGAGAGCTGTATTTGAACACA 59.755 40.000 0.00 0.00 0.00 3.72
2286 16975 5.858381 AGAGAGAGCTGTATTTGAACACAA 58.142 37.500 0.00 0.00 0.00 3.33
2287 16976 5.698545 AGAGAGAGCTGTATTTGAACACAAC 59.301 40.000 0.00 0.00 0.00 3.32
2288 16977 4.757149 AGAGAGCTGTATTTGAACACAACC 59.243 41.667 0.00 0.00 0.00 3.77
2289 16978 4.460263 AGAGCTGTATTTGAACACAACCA 58.540 39.130 0.00 0.00 0.00 3.67
2290 16979 4.887071 AGAGCTGTATTTGAACACAACCAA 59.113 37.500 0.00 0.00 0.00 3.67
2291 16980 5.359576 AGAGCTGTATTTGAACACAACCAAA 59.640 36.000 0.00 0.00 36.80 3.28
2292 16981 5.591099 AGCTGTATTTGAACACAACCAAAG 58.409 37.500 0.00 0.00 35.97 2.77
2293 16982 4.209080 GCTGTATTTGAACACAACCAAAGC 59.791 41.667 0.00 0.00 35.97 3.51
2294 16983 5.330455 TGTATTTGAACACAACCAAAGCA 57.670 34.783 0.00 0.00 35.97 3.91
2295 16984 5.105752 TGTATTTGAACACAACCAAAGCAC 58.894 37.500 0.00 0.00 35.97 4.40
2296 16985 2.663826 TTGAACACAACCAAAGCACC 57.336 45.000 0.00 0.00 0.00 5.01
2297 16986 0.820871 TGAACACAACCAAAGCACCC 59.179 50.000 0.00 0.00 0.00 4.61
2298 16987 1.111277 GAACACAACCAAAGCACCCT 58.889 50.000 0.00 0.00 0.00 4.34
2299 16988 1.067060 GAACACAACCAAAGCACCCTC 59.933 52.381 0.00 0.00 0.00 4.30
2300 16989 0.755327 ACACAACCAAAGCACCCTCC 60.755 55.000 0.00 0.00 0.00 4.30
2301 16990 1.152546 ACAACCAAAGCACCCTCCC 60.153 57.895 0.00 0.00 0.00 4.30
2302 16991 1.908299 CAACCAAAGCACCCTCCCC 60.908 63.158 0.00 0.00 0.00 4.81
2303 16992 3.160478 AACCAAAGCACCCTCCCCC 62.160 63.158 0.00 0.00 0.00 5.40
2304 16993 3.268032 CCAAAGCACCCTCCCCCT 61.268 66.667 0.00 0.00 0.00 4.79
2305 16994 2.854076 CAAAGCACCCTCCCCCTT 59.146 61.111 0.00 0.00 0.00 3.95
2306 16995 1.607467 CAAAGCACCCTCCCCCTTG 60.607 63.158 0.00 0.00 0.00 3.61
2307 16996 2.091283 AAAGCACCCTCCCCCTTGT 61.091 57.895 0.00 0.00 0.00 3.16
2308 16997 2.371897 AAAGCACCCTCCCCCTTGTG 62.372 60.000 0.00 0.00 0.00 3.33
2309 16998 3.580319 GCACCCTCCCCCTTGTGT 61.580 66.667 0.00 0.00 0.00 3.72
2310 16999 2.757077 CACCCTCCCCCTTGTGTC 59.243 66.667 0.00 0.00 0.00 3.67
2311 17000 1.847968 CACCCTCCCCCTTGTGTCT 60.848 63.158 0.00 0.00 0.00 3.41
2312 17001 1.539124 ACCCTCCCCCTTGTGTCTC 60.539 63.158 0.00 0.00 0.00 3.36
2313 17002 1.229658 CCCTCCCCCTTGTGTCTCT 60.230 63.158 0.00 0.00 0.00 3.10
2314 17003 1.268283 CCCTCCCCCTTGTGTCTCTC 61.268 65.000 0.00 0.00 0.00 3.20
2315 17004 0.252467 CCTCCCCCTTGTGTCTCTCT 60.252 60.000 0.00 0.00 0.00 3.10
2316 17005 1.190643 CTCCCCCTTGTGTCTCTCTC 58.809 60.000 0.00 0.00 0.00 3.20
2317 17006 0.252284 TCCCCCTTGTGTCTCTCTCC 60.252 60.000 0.00 0.00 0.00 3.71
2318 17007 1.268283 CCCCCTTGTGTCTCTCTCCC 61.268 65.000 0.00 0.00 0.00 4.30
2319 17008 0.545309 CCCCTTGTGTCTCTCTCCCA 60.545 60.000 0.00 0.00 0.00 4.37
2320 17009 1.577736 CCCTTGTGTCTCTCTCCCAT 58.422 55.000 0.00 0.00 0.00 4.00
2321 17010 1.209019 CCCTTGTGTCTCTCTCCCATG 59.791 57.143 0.00 0.00 0.00 3.66
2322 17011 1.406614 CCTTGTGTCTCTCTCCCATGC 60.407 57.143 0.00 0.00 0.00 4.06
2323 17012 1.277273 CTTGTGTCTCTCTCCCATGCA 59.723 52.381 0.00 0.00 0.00 3.96
2324 17013 1.351076 TGTGTCTCTCTCCCATGCAA 58.649 50.000 0.00 0.00 0.00 4.08
2325 17014 1.002430 TGTGTCTCTCTCCCATGCAAC 59.998 52.381 0.00 0.00 0.00 4.17
2326 17015 1.002430 GTGTCTCTCTCCCATGCAACA 59.998 52.381 0.00 0.00 0.00 3.33
2327 17016 1.002430 TGTCTCTCTCCCATGCAACAC 59.998 52.381 0.00 0.00 0.00 3.32
2328 17017 0.615331 TCTCTCTCCCATGCAACACC 59.385 55.000 0.00 0.00 0.00 4.16
2329 17018 0.325933 CTCTCTCCCATGCAACACCA 59.674 55.000 0.00 0.00 0.00 4.17
2330 17019 0.325933 TCTCTCCCATGCAACACCAG 59.674 55.000 0.00 0.00 0.00 4.00
2331 17020 0.679002 CTCTCCCATGCAACACCAGG 60.679 60.000 0.00 0.00 0.00 4.45
2332 17021 1.075482 CTCCCATGCAACACCAGGT 59.925 57.895 0.00 0.00 0.00 4.00
2333 17022 1.228521 TCCCATGCAACACCAGGTG 60.229 57.895 18.93 18.93 39.75 4.00
2334 17023 2.277591 CCCATGCAACACCAGGTGG 61.278 63.158 24.13 8.00 37.94 4.61
2335 17024 1.228521 CCATGCAACACCAGGTGGA 60.229 57.895 24.13 4.99 37.94 4.02
2336 17025 0.827089 CCATGCAACACCAGGTGGAA 60.827 55.000 24.13 1.36 37.94 3.53
2337 17026 1.039068 CATGCAACACCAGGTGGAAA 58.961 50.000 24.13 6.75 37.94 3.13
2338 17027 1.039856 ATGCAACACCAGGTGGAAAC 58.960 50.000 24.13 10.45 37.94 2.78
2339 17028 1.040339 TGCAACACCAGGTGGAAACC 61.040 55.000 24.13 7.65 37.94 3.27
2340 17029 1.744320 GCAACACCAGGTGGAAACCC 61.744 60.000 24.13 2.21 37.94 4.11
2341 17030 0.106217 CAACACCAGGTGGAAACCCT 60.106 55.000 24.13 0.00 37.94 4.34
2342 17031 1.144093 CAACACCAGGTGGAAACCCTA 59.856 52.381 24.13 0.00 37.94 3.53
2343 17032 1.064825 ACACCAGGTGGAAACCCTAG 58.935 55.000 24.13 0.00 37.94 3.02
2344 17033 1.064825 CACCAGGTGGAAACCCTAGT 58.935 55.000 12.40 0.00 38.94 2.57
2345 17034 1.064825 ACCAGGTGGAAACCCTAGTG 58.935 55.000 2.10 0.00 38.94 2.74
2346 17035 1.064825 CCAGGTGGAAACCCTAGTGT 58.935 55.000 0.00 0.00 37.39 3.55
2347 17036 1.003233 CCAGGTGGAAACCCTAGTGTC 59.997 57.143 0.00 0.00 37.39 3.67
2348 17037 0.974383 AGGTGGAAACCCTAGTGTCG 59.026 55.000 0.00 0.00 30.03 4.35
2349 17038 0.672711 GGTGGAAACCCTAGTGTCGC 60.673 60.000 0.00 0.00 30.03 5.19
2350 17039 0.672711 GTGGAAACCCTAGTGTCGCC 60.673 60.000 0.00 0.00 30.03 5.54
2351 17040 0.834687 TGGAAACCCTAGTGTCGCCT 60.835 55.000 0.00 0.00 30.03 5.52
2352 17041 0.108281 GGAAACCCTAGTGTCGCCTC 60.108 60.000 0.00 0.00 30.03 4.70
2353 17042 0.108281 GAAACCCTAGTGTCGCCTCC 60.108 60.000 0.00 0.00 0.00 4.30
2354 17043 0.834687 AAACCCTAGTGTCGCCTCCA 60.835 55.000 0.00 0.00 0.00 3.86
2355 17044 1.542187 AACCCTAGTGTCGCCTCCAC 61.542 60.000 0.00 0.00 0.00 4.02
2356 17045 1.682684 CCCTAGTGTCGCCTCCACT 60.683 63.158 0.00 0.00 44.90 4.00
2357 17046 0.395311 CCCTAGTGTCGCCTCCACTA 60.395 60.000 0.00 0.00 42.83 2.74
2360 17049 1.747709 TAGTGTCGCCTCCACTAGAC 58.252 55.000 0.00 0.00 42.83 2.59
2361 17050 0.038455 AGTGTCGCCTCCACTAGACT 59.962 55.000 0.00 0.00 41.24 3.24
2362 17051 0.452585 GTGTCGCCTCCACTAGACTC 59.547 60.000 0.00 0.00 34.92 3.36
2363 17052 0.680280 TGTCGCCTCCACTAGACTCC 60.680 60.000 0.00 0.00 34.92 3.85
2364 17053 0.394625 GTCGCCTCCACTAGACTCCT 60.395 60.000 0.00 0.00 0.00 3.69
2365 17054 0.107116 TCGCCTCCACTAGACTCCTC 60.107 60.000 0.00 0.00 0.00 3.71
2366 17055 1.104577 CGCCTCCACTAGACTCCTCC 61.105 65.000 0.00 0.00 0.00 4.30
2367 17056 0.260523 GCCTCCACTAGACTCCTCCT 59.739 60.000 0.00 0.00 0.00 3.69
2368 17057 1.342574 GCCTCCACTAGACTCCTCCTT 60.343 57.143 0.00 0.00 0.00 3.36
2369 17058 2.383855 CCTCCACTAGACTCCTCCTTG 58.616 57.143 0.00 0.00 0.00 3.61
2370 17059 1.754226 CTCCACTAGACTCCTCCTTGC 59.246 57.143 0.00 0.00 0.00 4.01
2371 17060 0.827368 CCACTAGACTCCTCCTTGCC 59.173 60.000 0.00 0.00 0.00 4.52
2372 17061 0.827368 CACTAGACTCCTCCTTGCCC 59.173 60.000 0.00 0.00 0.00 5.36
2373 17062 0.713579 ACTAGACTCCTCCTTGCCCT 59.286 55.000 0.00 0.00 0.00 5.19
2374 17063 1.342574 ACTAGACTCCTCCTTGCCCTC 60.343 57.143 0.00 0.00 0.00 4.30
2375 17064 1.011595 TAGACTCCTCCTTGCCCTCT 58.988 55.000 0.00 0.00 0.00 3.69
2376 17065 0.118144 AGACTCCTCCTTGCCCTCTT 59.882 55.000 0.00 0.00 0.00 2.85
2377 17066 1.362932 AGACTCCTCCTTGCCCTCTTA 59.637 52.381 0.00 0.00 0.00 2.10
2378 17067 2.022527 AGACTCCTCCTTGCCCTCTTAT 60.023 50.000 0.00 0.00 0.00 1.73
2379 17068 2.367241 GACTCCTCCTTGCCCTCTTATC 59.633 54.545 0.00 0.00 0.00 1.75
2380 17069 1.342819 CTCCTCCTTGCCCTCTTATCG 59.657 57.143 0.00 0.00 0.00 2.92
2381 17070 1.123928 CCTCCTTGCCCTCTTATCGT 58.876 55.000 0.00 0.00 0.00 3.73
2382 17071 1.069358 CCTCCTTGCCCTCTTATCGTC 59.931 57.143 0.00 0.00 0.00 4.20
2383 17072 0.744874 TCCTTGCCCTCTTATCGTCG 59.255 55.000 0.00 0.00 0.00 5.12
2384 17073 0.876342 CCTTGCCCTCTTATCGTCGC 60.876 60.000 0.00 0.00 0.00 5.19
2385 17074 0.103208 CTTGCCCTCTTATCGTCGCT 59.897 55.000 0.00 0.00 0.00 4.93
2386 17075 0.179111 TTGCCCTCTTATCGTCGCTG 60.179 55.000 0.00 0.00 0.00 5.18
2387 17076 1.951631 GCCCTCTTATCGTCGCTGC 60.952 63.158 0.00 0.00 0.00 5.25
2388 17077 1.300233 CCCTCTTATCGTCGCTGCC 60.300 63.158 0.00 0.00 0.00 4.85
2389 17078 1.437573 CCTCTTATCGTCGCTGCCA 59.562 57.895 0.00 0.00 0.00 4.92
2390 17079 0.872021 CCTCTTATCGTCGCTGCCAC 60.872 60.000 0.00 0.00 0.00 5.01
2391 17080 0.101399 CTCTTATCGTCGCTGCCACT 59.899 55.000 0.00 0.00 0.00 4.00
2392 17081 0.179137 TCTTATCGTCGCTGCCACTG 60.179 55.000 0.00 0.00 0.00 3.66
2393 17082 1.148157 CTTATCGTCGCTGCCACTGG 61.148 60.000 0.00 0.00 0.00 4.00
2403 17434 2.269241 GCCACTGGCCTCCACTAC 59.731 66.667 9.13 0.00 44.06 2.73
2423 17454 1.067635 CGGGGCATTCTCTTTTGTTGG 60.068 52.381 0.00 0.00 0.00 3.77
2430 17461 2.517402 TCTTTTGTTGGCGGCGGT 60.517 55.556 9.78 0.00 0.00 5.68
2461 17492 3.467226 GCATGCATGGCTGGGCTT 61.467 61.111 27.34 0.00 0.00 4.35
2471 17502 1.318158 GGCTGGGCTTGTGAATCTGG 61.318 60.000 0.00 0.00 0.00 3.86
2476 17507 1.363744 GGCTTGTGAATCTGGTCTCG 58.636 55.000 0.00 0.00 0.00 4.04
2477 17508 1.338200 GGCTTGTGAATCTGGTCTCGT 60.338 52.381 0.00 0.00 0.00 4.18
2517 17549 3.756933 ATGTGATTTGGTTTTGCAGCT 57.243 38.095 0.00 0.00 0.00 4.24
2547 17580 1.346068 GGAGACACTGGGCATAGATCC 59.654 57.143 0.00 0.00 0.00 3.36
2569 17602 3.557595 CGGTTGATCTCACAATAGGCTTC 59.442 47.826 0.00 0.00 32.36 3.86
2644 17678 2.103042 GCAACGGCGCTCTTGATCT 61.103 57.895 18.12 0.00 0.00 2.75
2648 17682 1.007964 CGGCGCTCTTGATCTCGAT 60.008 57.895 7.64 0.00 0.00 3.59
2659 17693 2.060004 GATCTCGATGTCGGCGTGGA 62.060 60.000 6.85 0.00 40.29 4.02
2673 17707 4.988716 TGGACGGTGGCTCGAGGT 62.989 66.667 15.58 2.36 0.00 3.85
2712 17746 1.317431 TGGTGGACCGTGGACGATAG 61.317 60.000 0.00 0.00 43.02 2.08
2714 17748 1.679641 TGGACCGTGGACGATAGCA 60.680 57.895 0.00 0.00 43.02 3.49
2721 17795 1.797713 CGTGGACGATAGCAACGACAT 60.798 52.381 0.00 0.00 40.40 3.06
2800 17874 4.474530 GCACTGTCAGCGAGAGAG 57.525 61.111 0.00 7.15 43.04 3.20
2801 17875 1.153862 GCACTGTCAGCGAGAGAGG 60.154 63.158 0.00 4.09 41.75 3.69
2802 17876 1.510383 CACTGTCAGCGAGAGAGGG 59.490 63.158 0.00 3.29 41.75 4.30
2808 17882 0.038310 TCAGCGAGAGAGGGAGTTCA 59.962 55.000 0.00 0.00 0.00 3.18
2816 17890 3.318313 AGAGAGGGAGTTCAAGGTGAAA 58.682 45.455 0.00 0.00 38.22 2.69
2831 17905 1.871676 GTGAAACCCCAACTTCGACTC 59.128 52.381 0.00 0.00 0.00 3.36
2832 17906 1.202722 TGAAACCCCAACTTCGACTCC 60.203 52.381 0.00 0.00 0.00 3.85
2833 17907 0.841289 AAACCCCAACTTCGACTCCA 59.159 50.000 0.00 0.00 0.00 3.86
2838 17912 2.356125 CCCCAACTTCGACTCCAATGAT 60.356 50.000 0.00 0.00 0.00 2.45
2839 17913 3.118408 CCCCAACTTCGACTCCAATGATA 60.118 47.826 0.00 0.00 0.00 2.15
2842 17916 4.806247 CCAACTTCGACTCCAATGATAGTC 59.194 45.833 5.87 5.87 39.00 2.59
2864 17938 3.479006 GGTGACGATGTTTTTGATGTCG 58.521 45.455 0.00 0.00 38.21 4.35
2865 17939 3.059188 GGTGACGATGTTTTTGATGTCGT 60.059 43.478 0.00 0.00 46.78 4.34
2867 17941 4.607235 GTGACGATGTTTTTGATGTCGTTC 59.393 41.667 0.12 0.00 44.49 3.95
2868 17942 4.141855 ACGATGTTTTTGATGTCGTTCC 57.858 40.909 0.00 0.00 42.17 3.62
2869 17943 3.058501 ACGATGTTTTTGATGTCGTTCCC 60.059 43.478 0.00 0.00 42.17 3.97
2871 17945 4.320202 CGATGTTTTTGATGTCGTTCCCTT 60.320 41.667 0.00 0.00 0.00 3.95
2872 17946 4.300189 TGTTTTTGATGTCGTTCCCTTG 57.700 40.909 0.00 0.00 0.00 3.61
2873 17947 3.067461 TGTTTTTGATGTCGTTCCCTTGG 59.933 43.478 0.00 0.00 0.00 3.61
2874 17948 2.940994 TTTGATGTCGTTCCCTTGGA 57.059 45.000 0.00 0.00 0.00 3.53
2875 17949 2.472695 TTGATGTCGTTCCCTTGGAG 57.527 50.000 0.00 0.00 31.21 3.86
2876 17950 0.613260 TGATGTCGTTCCCTTGGAGG 59.387 55.000 0.00 0.00 31.21 4.30
2878 17952 0.324943 ATGTCGTTCCCTTGGAGGTG 59.675 55.000 0.00 0.00 31.93 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
376 12119 5.046529 GCTTTCGACACAGATATGATGACT 58.953 41.667 0.00 0.00 0.00 3.41
387 12139 1.979469 CGTAGTGAGCTTTCGACACAG 59.021 52.381 5.41 0.00 37.05 3.66
406 12158 4.227538 CTGAAAGGCGTATATAGTGACCG 58.772 47.826 0.00 0.00 0.00 4.79
440 12192 6.543465 TGCCTTTCATTGATTATACTCAGTGG 59.457 38.462 13.35 2.03 34.60 4.00
537 12506 1.933115 AAATGCATTGTCGGTCGGCC 61.933 55.000 13.82 0.00 0.00 6.13
620 15284 1.002134 CTGTTTCCTGTCCCGGCAT 60.002 57.895 0.00 0.00 0.00 4.40
758 15424 4.931601 GGAGTGGTTACGGTTAAGTAAAGG 59.068 45.833 0.00 0.00 38.19 3.11
781 15447 9.760077 ATCTGAATTTAATTACCTACGGTAGTG 57.240 33.333 13.76 7.99 39.52 2.74
868 15539 5.971202 CGCATGTTTGGATTTTATAGTGTCC 59.029 40.000 0.00 0.00 0.00 4.02
903 15574 1.597937 CGCTCTGTGTTTTGCCTTGTC 60.598 52.381 0.00 0.00 0.00 3.18
908 15579 2.427410 CGCGCTCTGTGTTTTGCC 60.427 61.111 5.56 0.00 0.00 4.52
923 15594 1.018910 GGAGACTAGTGAGGAGACGC 58.981 60.000 0.00 0.00 0.00 5.19
944 15625 2.426381 GCCTAGCCTAGTACAGAAACGT 59.574 50.000 0.00 0.00 0.00 3.99
977 15659 3.640000 GGATCAATCGGCGCGTGG 61.640 66.667 8.43 0.00 0.00 4.94
1086 15768 1.758592 GTTCTGGCCCCAGTACACA 59.241 57.895 16.30 0.00 41.78 3.72
1197 15879 4.742201 GCAAGGTCGAGCTGCGGA 62.742 66.667 19.39 0.00 41.33 5.54
1393 16075 2.680352 ACCGGACGAGGATGCACT 60.680 61.111 9.46 0.00 34.73 4.40
1664 16346 0.670546 CTTCCACGCGTCCATGAAGT 60.671 55.000 9.86 0.00 0.00 3.01
1827 16509 6.058183 GTCATAGAACTTGGACCATAGCATT 58.942 40.000 0.00 0.00 0.00 3.56
1901 16583 3.126831 CACTGCTCGGGAGAACATATTC 58.873 50.000 0.00 0.00 39.18 1.75
1911 16593 0.973632 ATGTAACACACTGCTCGGGA 59.026 50.000 0.00 0.00 0.00 5.14
1927 16609 6.071221 TCGTACTTACAAAGATACCCACATGT 60.071 38.462 0.00 0.00 0.00 3.21
1955 16637 9.748708 CACAAAGATGAAAAGACCAAAGAATAA 57.251 29.630 0.00 0.00 0.00 1.40
1956 16638 7.867403 GCACAAAGATGAAAAGACCAAAGAATA 59.133 33.333 0.00 0.00 0.00 1.75
1957 16639 6.703165 GCACAAAGATGAAAAGACCAAAGAAT 59.297 34.615 0.00 0.00 0.00 2.40
1984 16666 6.135290 AGAATATGCGCACACAAATACATT 57.865 33.333 14.90 0.98 0.00 2.71
1998 16680 5.863935 TCGAGATATGGACAAAGAATATGCG 59.136 40.000 0.00 0.00 0.00 4.73
2062 16744 6.128553 ACAATGATGAGCTAACAACACTAACG 60.129 38.462 0.00 0.00 0.00 3.18
2064 16746 7.744087 AACAATGATGAGCTAACAACACTAA 57.256 32.000 0.00 0.00 0.00 2.24
2071 16753 5.997129 TCACAGAAACAATGATGAGCTAACA 59.003 36.000 0.00 0.00 0.00 2.41
2079 16761 5.084055 CGACATGTCACAGAAACAATGATG 58.916 41.667 24.93 0.00 0.00 3.07
2083 16765 5.390885 GCATACGACATGTCACAGAAACAAT 60.391 40.000 24.93 2.58 0.00 2.71
2090 16772 2.610433 ACTGCATACGACATGTCACAG 58.390 47.619 24.93 21.81 33.45 3.66
2091 16773 2.741759 ACTGCATACGACATGTCACA 57.258 45.000 24.93 12.30 0.00 3.58
2112 16794 4.315803 AGGTGAAAATACTGACACTTCCG 58.684 43.478 0.00 0.00 34.28 4.30
2219 16901 8.361169 AGCCAAGTTAAACATATACCAAATGT 57.639 30.769 0.00 0.00 39.22 2.71
2220 16902 7.920682 GGAGCCAAGTTAAACATATACCAAATG 59.079 37.037 0.00 0.00 0.00 2.32
2224 16906 6.321821 AGGAGCCAAGTTAAACATATACCA 57.678 37.500 0.00 0.00 0.00 3.25
2225 16907 8.208903 TCTTAGGAGCCAAGTTAAACATATACC 58.791 37.037 0.00 0.00 0.00 2.73
2232 16921 9.780186 ATATATGTCTTAGGAGCCAAGTTAAAC 57.220 33.333 0.00 0.00 0.00 2.01
2258 16947 6.434340 TGTTCAAATACAGCTCTCTCTCTGTA 59.566 38.462 4.81 4.81 46.12 2.74
2259 16948 5.244851 TGTTCAAATACAGCTCTCTCTCTGT 59.755 40.000 0.00 0.00 44.76 3.41
2260 16949 5.576384 GTGTTCAAATACAGCTCTCTCTCTG 59.424 44.000 0.00 0.00 36.45 3.35
2261 16950 5.244851 TGTGTTCAAATACAGCTCTCTCTCT 59.755 40.000 0.00 0.00 0.00 3.10
2262 16951 5.473931 TGTGTTCAAATACAGCTCTCTCTC 58.526 41.667 0.00 0.00 0.00 3.20
2263 16952 5.474578 TGTGTTCAAATACAGCTCTCTCT 57.525 39.130 0.00 0.00 0.00 3.10
2264 16953 5.106908 GGTTGTGTTCAAATACAGCTCTCTC 60.107 44.000 6.47 0.00 35.20 3.20
2265 16954 4.757149 GGTTGTGTTCAAATACAGCTCTCT 59.243 41.667 6.47 0.00 35.20 3.10
2266 16955 4.515191 TGGTTGTGTTCAAATACAGCTCTC 59.485 41.667 6.47 0.00 35.20 3.20
2267 16956 4.460263 TGGTTGTGTTCAAATACAGCTCT 58.540 39.130 6.47 0.00 35.20 4.09
2268 16957 4.829064 TGGTTGTGTTCAAATACAGCTC 57.171 40.909 6.47 0.00 35.20 4.09
2269 16958 5.590530 TTTGGTTGTGTTCAAATACAGCT 57.409 34.783 6.47 0.00 35.20 4.24
2270 16959 4.209080 GCTTTGGTTGTGTTCAAATACAGC 59.791 41.667 0.00 0.00 35.20 4.40
2271 16960 5.231991 GTGCTTTGGTTGTGTTCAAATACAG 59.768 40.000 0.00 0.00 35.20 2.74
2272 16961 5.105752 GTGCTTTGGTTGTGTTCAAATACA 58.894 37.500 0.00 0.00 35.20 2.29
2273 16962 4.506288 GGTGCTTTGGTTGTGTTCAAATAC 59.494 41.667 0.00 0.00 35.20 1.89
2274 16963 4.442192 GGGTGCTTTGGTTGTGTTCAAATA 60.442 41.667 0.00 0.00 35.20 1.40
2275 16964 3.530535 GGTGCTTTGGTTGTGTTCAAAT 58.469 40.909 0.00 0.00 35.20 2.32
2276 16965 2.354203 GGGTGCTTTGGTTGTGTTCAAA 60.354 45.455 0.00 0.00 35.20 2.69
2277 16966 1.205893 GGGTGCTTTGGTTGTGTTCAA 59.794 47.619 0.00 0.00 0.00 2.69
2278 16967 0.820871 GGGTGCTTTGGTTGTGTTCA 59.179 50.000 0.00 0.00 0.00 3.18
2279 16968 1.067060 GAGGGTGCTTTGGTTGTGTTC 59.933 52.381 0.00 0.00 0.00 3.18
2280 16969 1.111277 GAGGGTGCTTTGGTTGTGTT 58.889 50.000 0.00 0.00 0.00 3.32
2281 16970 0.755327 GGAGGGTGCTTTGGTTGTGT 60.755 55.000 0.00 0.00 0.00 3.72
2282 16971 1.463553 GGGAGGGTGCTTTGGTTGTG 61.464 60.000 0.00 0.00 0.00 3.33
2283 16972 1.152546 GGGAGGGTGCTTTGGTTGT 60.153 57.895 0.00 0.00 0.00 3.32
2284 16973 1.908299 GGGGAGGGTGCTTTGGTTG 60.908 63.158 0.00 0.00 0.00 3.77
2285 16974 2.526110 GGGGAGGGTGCTTTGGTT 59.474 61.111 0.00 0.00 0.00 3.67
2286 16975 3.590574 GGGGGAGGGTGCTTTGGT 61.591 66.667 0.00 0.00 0.00 3.67
2287 16976 2.856937 AAGGGGGAGGGTGCTTTGG 61.857 63.158 0.00 0.00 0.00 3.28
2288 16977 1.607467 CAAGGGGGAGGGTGCTTTG 60.607 63.158 0.00 0.00 0.00 2.77
2289 16978 2.091283 ACAAGGGGGAGGGTGCTTT 61.091 57.895 0.00 0.00 0.00 3.51
2290 16979 2.452491 ACAAGGGGGAGGGTGCTT 60.452 61.111 0.00 0.00 0.00 3.91
2291 16980 3.260100 CACAAGGGGGAGGGTGCT 61.260 66.667 0.00 0.00 0.00 4.40
2292 16981 3.569200 GACACAAGGGGGAGGGTGC 62.569 68.421 0.00 0.00 34.69 5.01
2293 16982 1.842381 GAGACACAAGGGGGAGGGTG 61.842 65.000 0.00 0.00 37.29 4.61
2294 16983 1.539124 GAGACACAAGGGGGAGGGT 60.539 63.158 0.00 0.00 0.00 4.34
2295 16984 1.229658 AGAGACACAAGGGGGAGGG 60.230 63.158 0.00 0.00 0.00 4.30
2296 16985 0.252467 AGAGAGACACAAGGGGGAGG 60.252 60.000 0.00 0.00 0.00 4.30
2297 16986 1.190643 GAGAGAGACACAAGGGGGAG 58.809 60.000 0.00 0.00 0.00 4.30
2298 16987 0.252284 GGAGAGAGACACAAGGGGGA 60.252 60.000 0.00 0.00 0.00 4.81
2299 16988 1.268283 GGGAGAGAGACACAAGGGGG 61.268 65.000 0.00 0.00 0.00 5.40
2300 16989 0.545309 TGGGAGAGAGACACAAGGGG 60.545 60.000 0.00 0.00 0.00 4.79
2301 16990 1.209019 CATGGGAGAGAGACACAAGGG 59.791 57.143 0.00 0.00 0.00 3.95
2302 16991 1.406614 GCATGGGAGAGAGACACAAGG 60.407 57.143 0.00 0.00 0.00 3.61
2303 16992 1.277273 TGCATGGGAGAGAGACACAAG 59.723 52.381 0.00 0.00 0.00 3.16
2304 16993 1.351076 TGCATGGGAGAGAGACACAA 58.649 50.000 0.00 0.00 0.00 3.33
2305 16994 1.002430 GTTGCATGGGAGAGAGACACA 59.998 52.381 0.00 0.00 0.00 3.72
2306 16995 1.002430 TGTTGCATGGGAGAGAGACAC 59.998 52.381 0.00 0.00 0.00 3.67
2307 16996 1.002430 GTGTTGCATGGGAGAGAGACA 59.998 52.381 0.00 0.00 0.00 3.41
2308 16997 1.677217 GGTGTTGCATGGGAGAGAGAC 60.677 57.143 0.00 0.00 0.00 3.36
2309 16998 0.615331 GGTGTTGCATGGGAGAGAGA 59.385 55.000 0.00 0.00 0.00 3.10
2310 16999 0.325933 TGGTGTTGCATGGGAGAGAG 59.674 55.000 0.00 0.00 0.00 3.20
2311 17000 0.325933 CTGGTGTTGCATGGGAGAGA 59.674 55.000 0.00 0.00 0.00 3.10
2312 17001 0.679002 CCTGGTGTTGCATGGGAGAG 60.679 60.000 0.00 0.00 0.00 3.20
2313 17002 1.379916 CCTGGTGTTGCATGGGAGA 59.620 57.895 0.00 0.00 0.00 3.71
2314 17003 1.075482 ACCTGGTGTTGCATGGGAG 59.925 57.895 0.00 0.00 0.00 4.30
2315 17004 1.228521 CACCTGGTGTTGCATGGGA 60.229 57.895 18.76 0.00 0.00 4.37
2316 17005 2.277591 CCACCTGGTGTTGCATGGG 61.278 63.158 24.32 3.65 0.00 4.00
2317 17006 0.827089 TTCCACCTGGTGTTGCATGG 60.827 55.000 24.32 8.41 36.34 3.66
2318 17007 1.039068 TTTCCACCTGGTGTTGCATG 58.961 50.000 24.32 8.93 36.34 4.06
2319 17008 1.039856 GTTTCCACCTGGTGTTGCAT 58.960 50.000 24.32 0.00 36.34 3.96
2320 17009 1.040339 GGTTTCCACCTGGTGTTGCA 61.040 55.000 24.32 3.81 40.44 4.08
2321 17010 1.739667 GGTTTCCACCTGGTGTTGC 59.260 57.895 24.32 11.68 40.44 4.17
2322 17011 0.106217 AGGGTTTCCACCTGGTGTTG 60.106 55.000 24.32 11.06 43.65 3.33
2323 17012 1.423921 CTAGGGTTTCCACCTGGTGTT 59.576 52.381 24.32 4.74 43.65 3.32
2324 17013 1.064825 CTAGGGTTTCCACCTGGTGT 58.935 55.000 24.32 7.52 43.65 4.16
2325 17014 1.064825 ACTAGGGTTTCCACCTGGTG 58.935 55.000 20.01 20.01 46.47 4.17
2326 17015 3.591188 ACTAGGGTTTCCACCTGGT 57.409 52.632 0.00 0.00 43.93 4.00
2327 17016 1.003233 GACACTAGGGTTTCCACCTGG 59.997 57.143 0.00 0.00 43.65 4.45
2328 17017 1.337823 CGACACTAGGGTTTCCACCTG 60.338 57.143 0.00 0.00 43.65 4.00
2329 17018 0.974383 CGACACTAGGGTTTCCACCT 59.026 55.000 0.00 0.00 43.65 4.00
2330 17019 0.672711 GCGACACTAGGGTTTCCACC 60.673 60.000 0.00 0.00 43.37 4.61
2331 17020 0.672711 GGCGACACTAGGGTTTCCAC 60.673 60.000 0.00 0.00 34.83 4.02
2332 17021 0.834687 AGGCGACACTAGGGTTTCCA 60.835 55.000 16.08 0.00 34.83 3.53
2333 17022 0.108281 GAGGCGACACTAGGGTTTCC 60.108 60.000 0.00 3.61 0.00 3.13
2334 17023 0.108281 GGAGGCGACACTAGGGTTTC 60.108 60.000 0.00 0.00 0.00 2.78
2335 17024 0.834687 TGGAGGCGACACTAGGGTTT 60.835 55.000 0.00 0.00 0.00 3.27
2336 17025 1.229082 TGGAGGCGACACTAGGGTT 60.229 57.895 0.00 0.00 0.00 4.11
2337 17026 1.982938 GTGGAGGCGACACTAGGGT 60.983 63.158 0.00 0.00 35.98 4.34
2338 17027 0.395311 TAGTGGAGGCGACACTAGGG 60.395 60.000 16.70 0.00 46.62 3.53
2339 17028 3.186345 TAGTGGAGGCGACACTAGG 57.814 57.895 16.70 0.00 46.62 3.02
2341 17030 1.281287 AGTCTAGTGGAGGCGACACTA 59.719 52.381 18.63 18.63 46.62 2.74
2343 17032 0.452585 GAGTCTAGTGGAGGCGACAC 59.547 60.000 6.51 6.51 39.10 3.67
2344 17033 0.680280 GGAGTCTAGTGGAGGCGACA 60.680 60.000 0.00 0.00 33.72 4.35
2345 17034 0.394625 AGGAGTCTAGTGGAGGCGAC 60.395 60.000 0.00 0.00 33.72 5.19
2346 17035 0.107116 GAGGAGTCTAGTGGAGGCGA 60.107 60.000 0.00 0.00 33.72 5.54
2347 17036 1.104577 GGAGGAGTCTAGTGGAGGCG 61.105 65.000 0.00 0.00 33.72 5.52
2348 17037 0.260523 AGGAGGAGTCTAGTGGAGGC 59.739 60.000 0.00 0.00 0.00 4.70
2349 17038 2.383855 CAAGGAGGAGTCTAGTGGAGG 58.616 57.143 0.00 0.00 0.00 4.30
2350 17039 1.754226 GCAAGGAGGAGTCTAGTGGAG 59.246 57.143 0.00 0.00 0.00 3.86
2351 17040 1.619977 GGCAAGGAGGAGTCTAGTGGA 60.620 57.143 0.00 0.00 0.00 4.02
2352 17041 0.827368 GGCAAGGAGGAGTCTAGTGG 59.173 60.000 0.00 0.00 0.00 4.00
2353 17042 0.827368 GGGCAAGGAGGAGTCTAGTG 59.173 60.000 0.00 0.00 0.00 2.74
2354 17043 0.713579 AGGGCAAGGAGGAGTCTAGT 59.286 55.000 0.00 0.00 0.00 2.57
2355 17044 1.063266 AGAGGGCAAGGAGGAGTCTAG 60.063 57.143 0.00 0.00 0.00 2.43
2356 17045 1.011595 AGAGGGCAAGGAGGAGTCTA 58.988 55.000 0.00 0.00 0.00 2.59
2357 17046 0.118144 AAGAGGGCAAGGAGGAGTCT 59.882 55.000 0.00 0.00 0.00 3.24
2358 17047 1.867363 TAAGAGGGCAAGGAGGAGTC 58.133 55.000 0.00 0.00 0.00 3.36
2359 17048 2.403561 GATAAGAGGGCAAGGAGGAGT 58.596 52.381 0.00 0.00 0.00 3.85
2360 17049 1.342819 CGATAAGAGGGCAAGGAGGAG 59.657 57.143 0.00 0.00 0.00 3.69
2361 17050 1.343075 ACGATAAGAGGGCAAGGAGGA 60.343 52.381 0.00 0.00 0.00 3.71
2362 17051 1.069358 GACGATAAGAGGGCAAGGAGG 59.931 57.143 0.00 0.00 0.00 4.30
2363 17052 1.269309 CGACGATAAGAGGGCAAGGAG 60.269 57.143 0.00 0.00 0.00 3.69
2364 17053 0.744874 CGACGATAAGAGGGCAAGGA 59.255 55.000 0.00 0.00 0.00 3.36
2365 17054 0.876342 GCGACGATAAGAGGGCAAGG 60.876 60.000 0.00 0.00 0.00 3.61
2366 17055 0.103208 AGCGACGATAAGAGGGCAAG 59.897 55.000 0.00 0.00 0.00 4.01
2367 17056 0.179111 CAGCGACGATAAGAGGGCAA 60.179 55.000 0.00 0.00 0.00 4.52
2368 17057 1.437573 CAGCGACGATAAGAGGGCA 59.562 57.895 0.00 0.00 0.00 5.36
2369 17058 1.951631 GCAGCGACGATAAGAGGGC 60.952 63.158 0.00 0.00 0.00 5.19
2370 17059 1.300233 GGCAGCGACGATAAGAGGG 60.300 63.158 0.00 0.00 0.00 4.30
2371 17060 0.872021 GTGGCAGCGACGATAAGAGG 60.872 60.000 0.00 0.00 0.00 3.69
2372 17061 0.101399 AGTGGCAGCGACGATAAGAG 59.899 55.000 0.00 0.00 0.00 2.85
2373 17062 0.179137 CAGTGGCAGCGACGATAAGA 60.179 55.000 0.00 0.00 0.00 2.10
2374 17063 1.148157 CCAGTGGCAGCGACGATAAG 61.148 60.000 0.00 0.00 0.00 1.73
2375 17064 1.153647 CCAGTGGCAGCGACGATAA 60.154 57.895 0.00 0.00 0.00 1.75
2376 17065 2.494445 CCAGTGGCAGCGACGATA 59.506 61.111 0.00 0.00 0.00 2.92
2387 17076 2.579201 CGTAGTGGAGGCCAGTGG 59.421 66.667 5.01 4.20 37.77 4.00
2388 17077 2.579201 CCGTAGTGGAGGCCAGTG 59.421 66.667 5.01 0.00 42.00 3.66
2389 17078 2.683933 CCCGTAGTGGAGGCCAGT 60.684 66.667 5.01 0.00 42.00 4.00
2390 17079 3.470888 CCCCGTAGTGGAGGCCAG 61.471 72.222 5.01 0.00 42.00 4.85
2394 17083 1.146263 GAATGCCCCGTAGTGGAGG 59.854 63.158 0.00 0.00 42.00 4.30
2395 17084 0.105039 GAGAATGCCCCGTAGTGGAG 59.895 60.000 0.00 0.00 42.00 3.86
2403 17434 1.067635 CCAACAAAAGAGAATGCCCCG 60.068 52.381 0.00 0.00 0.00 5.73
2461 17492 1.000843 CACCACGAGACCAGATTCACA 59.999 52.381 0.00 0.00 0.00 3.58
2471 17502 2.094390 TGCTACAATACCACCACGAGAC 60.094 50.000 0.00 0.00 0.00 3.36
2476 17507 2.403252 AGCTGCTACAATACCACCAC 57.597 50.000 0.00 0.00 0.00 4.16
2477 17508 4.080582 ACATTAGCTGCTACAATACCACCA 60.081 41.667 9.27 0.00 0.00 4.17
2517 17549 0.249120 CAGTGTCTCCCGCCACATAA 59.751 55.000 0.00 0.00 33.99 1.90
2534 17567 0.758734 TCAACCGGATCTATGCCCAG 59.241 55.000 9.46 0.00 0.00 4.45
2547 17580 3.185246 AGCCTATTGTGAGATCAACCG 57.815 47.619 0.00 0.00 0.00 4.44
2633 17666 1.393726 CGACATCGAGATCAAGAGCG 58.606 55.000 0.00 0.00 43.02 5.03
2634 17667 1.764851 CCGACATCGAGATCAAGAGC 58.235 55.000 2.09 0.00 43.02 4.09
2641 17675 2.119029 TCCACGCCGACATCGAGAT 61.119 57.895 2.09 0.00 43.02 2.75
2644 17678 4.470170 CGTCCACGCCGACATCGA 62.470 66.667 2.09 0.00 43.02 3.59
2659 17693 3.681835 GACACCTCGAGCCACCGT 61.682 66.667 6.99 0.00 0.00 4.83
2673 17707 0.397564 TGCTTGCATGACAGGAGACA 59.602 50.000 3.33 0.00 0.00 3.41
2680 17714 0.251253 TCCACCATGCTTGCATGACA 60.251 50.000 30.12 12.44 34.66 3.58
2707 17741 2.787723 GCCAAACATGTCGTTGCTATCG 60.788 50.000 0.00 0.00 38.07 2.92
2712 17746 1.729131 CCGCCAAACATGTCGTTGC 60.729 57.895 0.00 0.00 38.07 4.17
2714 17748 1.523154 ATGCCGCCAAACATGTCGTT 61.523 50.000 0.00 0.00 40.50 3.85
2721 17795 0.595588 CACTTGTATGCCGCCAAACA 59.404 50.000 0.00 0.00 0.00 2.83
2791 17865 1.181786 CTTGAACTCCCTCTCTCGCT 58.818 55.000 0.00 0.00 0.00 4.93
2793 17867 1.203523 CACCTTGAACTCCCTCTCTCG 59.796 57.143 0.00 0.00 0.00 4.04
2794 17868 2.530701 TCACCTTGAACTCCCTCTCTC 58.469 52.381 0.00 0.00 0.00 3.20
2796 17870 3.403968 GTTTCACCTTGAACTCCCTCTC 58.596 50.000 0.00 0.00 35.89 3.20
2797 17871 2.106684 GGTTTCACCTTGAACTCCCTCT 59.893 50.000 0.00 0.00 35.89 3.69
2798 17872 2.505405 GGTTTCACCTTGAACTCCCTC 58.495 52.381 0.00 0.00 35.89 4.30
2799 17873 1.145119 GGGTTTCACCTTGAACTCCCT 59.855 52.381 15.61 0.00 42.45 4.20
2800 17874 1.617322 GGGTTTCACCTTGAACTCCC 58.383 55.000 10.65 10.65 40.72 4.30
2801 17875 1.133606 TGGGGTTTCACCTTGAACTCC 60.134 52.381 0.00 0.00 35.89 3.85
2802 17876 2.358322 TGGGGTTTCACCTTGAACTC 57.642 50.000 0.00 0.00 35.89 3.01
2808 17882 1.213430 TCGAAGTTGGGGTTTCACCTT 59.787 47.619 0.00 0.00 38.64 3.50
2816 17890 1.064825 ATTGGAGTCGAAGTTGGGGT 58.935 50.000 0.00 0.00 0.00 4.95
2831 17905 2.863401 TCGTCACCGACTATCATTGG 57.137 50.000 0.00 0.00 38.40 3.16
2842 17916 3.479006 GACATCAAAAACATCGTCACCG 58.521 45.455 0.00 0.00 0.00 4.94
2849 17923 4.766404 AGGGAACGACATCAAAAACATC 57.234 40.909 0.00 0.00 0.00 3.06
2853 17927 3.556999 TCCAAGGGAACGACATCAAAAA 58.443 40.909 0.00 0.00 0.00 1.94
2855 17929 2.552155 CCTCCAAGGGAACGACATCAAA 60.552 50.000 0.00 0.00 0.00 2.69
2858 17932 0.613777 ACCTCCAAGGGAACGACATC 59.386 55.000 0.00 0.00 40.58 3.06
2859 17933 0.324943 CACCTCCAAGGGAACGACAT 59.675 55.000 0.00 0.00 40.58 3.06
2861 17935 0.108019 AACACCTCCAAGGGAACGAC 59.892 55.000 0.00 0.00 40.58 4.34
2862 17936 0.107831 CAACACCTCCAAGGGAACGA 59.892 55.000 0.00 0.00 40.58 3.85
2863 17937 0.179029 ACAACACCTCCAAGGGAACG 60.179 55.000 0.00 0.00 40.58 3.95
2864 17938 1.681264 CAACAACACCTCCAAGGGAAC 59.319 52.381 0.00 0.00 40.58 3.62
2865 17939 1.286553 ACAACAACACCTCCAAGGGAA 59.713 47.619 0.00 0.00 40.58 3.97
2867 17941 1.032014 CACAACAACACCTCCAAGGG 58.968 55.000 0.00 0.00 40.58 3.95
2868 17942 2.051334 TCACAACAACACCTCCAAGG 57.949 50.000 0.00 0.00 42.49 3.61
2869 17943 2.223572 GCTTCACAACAACACCTCCAAG 60.224 50.000 0.00 0.00 0.00 3.61
2871 17945 1.064758 AGCTTCACAACAACACCTCCA 60.065 47.619 0.00 0.00 0.00 3.86
2872 17946 1.604278 GAGCTTCACAACAACACCTCC 59.396 52.381 0.00 0.00 0.00 4.30
2873 17947 1.604278 GGAGCTTCACAACAACACCTC 59.396 52.381 0.00 0.00 0.00 3.85
2874 17948 1.680338 GGAGCTTCACAACAACACCT 58.320 50.000 0.00 0.00 0.00 4.00


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.